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The term conserved relates to the occurrence of the motif in multiple promoter sequences of a particular gene family.
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In some cases, species of conservation interest can be studied using reference genomes of closely or more distantly related model species, as linkage groups are likely to be conserved across related species.
Diverse methods for motif discovery make use of orthologous conservation to assess wether a particular DNA site is conserved across related organisms, and thus more likely to be functional.
Analysis of genomes of ten closely-related rice species and four Arabidopsis-related species found that CaCA gene family structures are highly conserved within related plants, apart from minor variation.
Interestingly, the respective histidine residue (His174) is conserved among related bicovalently flavinylated proteins with oxidase activity, whereas no strict conservation is found for the corresponding tyrosine residue.
As the residue G276 was not conserved and related to the catalytic efficiency, a saturation mutagenesis library on the residue G276 was constructed.
The fundamental functions of these multiple transporter proteins include: (1) conserved mechanisms related to nutrition and pathogenesis in bacteria, (2) spore formation in fungi, and (3) signal transduction, protein secretion and antigen presentation in eukaryotes.
A conserved estrogen related receptor response element (ERRE) was identified in the YY1 promoter (Figure S3b).
Moreover, all so far described features seemed to be hardly conserved in related genomes.
P-POD can be used to estimate whether essential yeast genes are more likely to be conserved and/or related to a human disease gene.
The Pfam annotation is an extensive collection of manually curated protein multiple sequence alignments that describes each protein family as a set of conserved domains related to a particular function.
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